LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_525.5wLII_11390_11
Total number of 3D structures: 47
LGA calculations using distance cutoff DIST: 4.0 A

Residues superimposed below 2.00 A: GREEN
Residues superimposed below 4.00 A: YELLOW
Residues superimposed below 6.00 A: ORANGE
Residues superimposed below 8.00 A: BROWN
Residues superimposed above 8.00 A or not aligned: RED
Terminal residues not aligned: GREY

Structure Deviation Summary

Calculations based on one final LGA superposition
(Bar representation of 3D plots, TEXT)

Structures ordered by LGA_S - score
Structure
NS
NT
N(dist=4.0)
RMSD(N)
Seq_ID(N)
LGA_S
LGA_Q
PLOTS
1ypw_A
692
275
183
1.69
15.85
63.509
10.235
T P
1r7r_A
683
275
173
2.01
15.61
54.022
8.189
T P
3cf2_A
659
275
160
1.96
13.12
50.237
7.778
T P
1s3s_F
441
275
155
1.97
13.55
48.641
7.472
T P
3d8b_A
281
275
156
2.04
13.46
47.752
7.304
T P
3b9p_A
268
275
151
1.95
13.91
46.802
7.371
T P
3eie_A
303
275
152
2.00
11.18
46.747
7.230
T P
3eih_A
319
275
156
2.02
11.54
46.365
7.347
T P
2ce7_C
421
275
146
2.04
14.38
46.118
6.822
T P
1iy2_A
245
275
154
2.08
12.34
45.045
7.054
T P
1xwi_A
322
275
155
2.07
13.55
44.563
7.154
T P
2qp9_X
288
275
147
2.05
12.24
43.345
6.837
T P
1ixz_A
238
275
148
2.10
12.84
43.152
6.731
T P
1yqi_C
708
275
152
2.13
11.18
42.441
6.826
T P
2dhr_A
458
275
162
2.11
10.49
42.433
7.318
T P
2qz4_A
223
275
138
2.06
11.59
42.259
6.396
T P
2rko_A
280
275
141
2.09
12.06
41.260
6.426
T P
3cf0_A
281
275
152
2.20
9.87
40.559
6.617
T P
2zan_A
312
275
148
2.14
15.54
39.086
6.600
T P
1lv7_A
251
275
150
2.16
11.33
38.869
6.637
T P
1j7k_A
299
275
131
2.11
12.98
37.614
5.922
T P
1in5_A
301
275
130
2.03
13.08
37.579
6.094
T P
1in4_A
298
275
130
2.07
13.85
37.516
5.987
T P
1in8_A
298
275
130
2.10
15.38
37.409
5.916
T P
1in7_A
298
275
134
2.16
14.93
35.422
5.922
T P
1e94_F
408
275
135
2.23
11.11
33.893
5.784
T P
2c9o_A
398
275
135
2.32
13.33
33.822
5.575
T P
1g4a_E
356
275
135
2.31
10.37
33.486
5.610
T P
1g41_A
334
275
134
2.23
11.19
33.427
5.762
T P
1ofh_A
309
275
131
2.22
11.45
33.332
5.647
T P
1ixs_B
315
275
128
2.26
10.94
33.264
5.430
T P
2r62_A
249
275
133
2.49
11.28
32.639
5.142
T P
1ixr_C
308
275
125
2.22
12.00
32.390
5.392
T P
1doo_E
393
275
130
2.42
10.00
32.102
5.151
T P
1hqc_A
314
275
129
2.27
11.63
31.654
5.448
T P
1iqp_A
326
275
128
2.24
14.06
31.509
5.481
T P
2chq_A
313
275
123
2.25
13.01
30.682
5.229
T P
1njg_A
240
275
122
2.41
13.11
30.212
4.859
T P
2chg_A
223
275
115
2.16
11.30
29.852
5.095
T P
1um8_A
327
275
122
2.27
12.30
29.769
5.139
T P
1xxi_C
366
275
124
2.39
12.90
29.439
4.971
T P
1sxj_A
441
275
124
2.50
12.10
28.910
4.764
T P
1sxj_D
328
275
122
2.41
17.21
28.842
4.853
T P
1sxj_C
322
275
114
2.51
14.04
26.732
4.363
T P
2qgz_A
183
275
103
2.27
15.53
25.193
4.341
T P
1rkb_A
173
275
78
2.32
17.95
19.079
3.219
T P
2dvw_B
73
275
43
2.58
13.95
10.186
1.604
T P

NS : Total number of residues in Structure (rotated structure)
NT : Total number of residues in TARGET (frame of reference)
N : Total number of residues superimposed under 4.0 Angstrom distance cutoff
RMSD : RMS deviation calculated on all N residues superimposed under 4.0 Angstrom distance cutoff
Seq_Id : Sequence Identity. Percent of identical residues from the total of N aligned.
LGA_S : Structure similarity score calculated by internal LGA procedure (see LGA paper for details)
LGA_Q : Score (how tight is the superposition) calculated by the formula: Q = 0.1*N/(0.1+RMSD)
PLOTS : T - Flat text file (output from LGA program, rotated structure)
PLOTS : P - Plot of superimposed structures (3D plot colored as bars)

Citing LGA:
Zemla A., "LGA - a Method for Finding 3D Similarities in Protein Structures", Nucleic Acids Research, 2003, Vol. 31, No. 13, pp. 3370-3374. [MEDLINE]